sub-004, task-Oddball

Raw (original), run 01 data-quality raw run-01

Info raw run-01 data-quality

	General
	Filename(s)	sub-004_task-Oddball_run-01_eeg.set
	MNE object type	RawEEGLAB
	Measurement date	Unknown
	Participant	sub-004
	Experimenter	Unknown
	Acquisition
	Duration	00:09:11 (HH:MM:SS)
	Sampling frequency	500.00 Hz
	Time points	275,500
	Channels
	EEG
	EOG
	Head & sensor digitization	66 points
	Filters
	Highpass	0.00 Hz
	Lowpass	250.00 Hz

Time series raw run-01 data-quality

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PSD raw run-01 data-quality

Raw (filtered), run 01 filtered raw run-01

Info raw run-01 filtered

	General
	Filename(s)	sub-004_task-Oddball_run-01_eeg.set
	MNE object type	RawEEGLAB
	Measurement date	Unknown
	Participant	sub-004
	Experimenter	Unknown
	Acquisition
	Duration	00:09:11 (HH:MM:SS)
	Sampling frequency	500.00 Hz
	Time points	275,500
	Channels
	EEG
	EOG
	Head & sensor digitization	66 points
	Filters
	Highpass	1.00 Hz
	Lowpass	120.00 Hz

Time series raw run-01 filtered

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PSD raw run-01 filtered

ICA: epochs for fitting autoreject epochs ica

Info ica epochs

	General
	MNE object type	Epochs
	Measurement date	Unknown
	Participant	sub-004
	Experimenter	Unknown
	Acquisition
	Total number of events	140
	Events counts	ODDBALL RARE: 27 ODDBALL STANDARD: 113
	Time range	-2.000 – 2.000 s
	Baseline	off
	Sampling frequency	500.00 Hz
	Time points	2,001
	Metadata	140 rows × 6 columns
	Channels
	EEG
	EOG
	Head & sensor digitization	66 points
	Filters
	Highpass	1.00 Hz
	Lowpass	120.00 Hz
	Projections	Average EEG reference (off)

Metadata ica epochs

Epoch #	event_name	ODDBALL RARE	ODDBALL STANDARD
2	ODDBALL STANDARD		-1.736
3	ODDBALL STANDARD		-1.638
4	ODDBALL STANDARD		-1.812
5	ODDBALL RARE	0.000	1.548
6	ODDBALL STANDARD	-1.548	0.000
7	ODDBALL STANDARD		-1.958
8	ODDBALL STANDARD		0.000
9	ODDBALL STANDARD		-1.744
10	ODDBALL STANDARD		0.000
11	ODDBALL RARE	0.000	1.712
12	ODDBALL STANDARD	-1.712	0.000
16	ODDBALL RARE	0.000
17	ODDBALL STANDARD		0.000
18	ODDBALL STANDARD		-1.820
20	ODDBALL STANDARD		0.000
23	ODDBALL STANDARD		0.000
24	ODDBALL STANDARD	1.562	-1.710
25	ODDBALL RARE	0.000	-1.562
26	ODDBALL STANDARD	-1.886	0.000
27	ODDBALL STANDARD		-1.710
28	ODDBALL STANDARD	1.580	-1.566
29	ODDBALL RARE	0.000	-1.580
30	ODDBALL STANDARD	-1.912	0.000
31	ODDBALL STANDARD		0.000
34	ODDBALL STANDARD	1.678	0.000
35	ODDBALL RARE	0.000	-1.678
36	ODDBALL STANDARD		0.000
37	ODDBALL STANDARD		0.000
40	ODDBALL STANDARD		0.000
41	ODDBALL RARE	0.000	1.718
42	ODDBALL STANDARD	-1.718	0.000
43	ODDBALL STANDARD		0.000
44	ODDBALL STANDARD		0.000
45	ODDBALL STANDARD		-1.708
46	ODDBALL STANDARD		0.000
47	ODDBALL RARE	0.000
48	ODDBALL STANDARD		0.000
49	ODDBALL STANDARD		0.000
50	ODDBALL STANDARD		0.000
51	ODDBALL STANDARD		0.000
52	ODDBALL STANDARD	1.972	0.000
53	ODDBALL RARE	0.000	-1.972
55	ODDBALL STANDARD		0.000
56	ODDBALL STANDARD		-1.628
57	ODDBALL STANDARD	1.692	0.000
58	ODDBALL RARE	0.000	-1.692
59	ODDBALL STANDARD	-1.546	0.000
60	ODDBALL STANDARD		-1.556
61	ODDBALL STANDARD		-1.630
62	ODDBALL STANDARD		-1.900
65	ODDBALL STANDARD		0.000
66	ODDBALL STANDARD		0.000
67	ODDBALL STANDARD		0.000
70	ODDBALL STANDARD		0.000
71	ODDBALL STANDARD		-1.712
72	ODDBALL STANDARD	1.820	-1.612
75	ODDBALL STANDARD		0.000
76	ODDBALL STANDARD		-1.672
77	ODDBALL STANDARD		0.000
78	ODDBALL STANDARD		-1.732
79	ODDBALL RARE	0.000	1.816
80	ODDBALL STANDARD	-1.816	0.000
81	ODDBALL STANDARD	1.818	0.000
82	ODDBALL RARE	0.000	-1.818
83	ODDBALL STANDARD	-1.996	0.000
84	ODDBALL STANDARD		0.000
85	ODDBALL STANDARD		0.000
86	ODDBALL STANDARD		0.000
87	ODDBALL STANDARD	1.546	0.000
88	ODDBALL RARE	0.000	-1.546
89	ODDBALL STANDARD	-1.626	0.000
90	ODDBALL STANDARD	1.590	-1.872
91	ODDBALL RARE	0.000	-1.590
92	ODDBALL STANDARD		0.000
93	ODDBALL STANDARD		-1.730
94	ODDBALL STANDARD		0.000
95	ODDBALL STANDARD		0.000
96	ODDBALL RARE	0.000	1.546
97	ODDBALL STANDARD	-1.546	0.000
98	ODDBALL STANDARD		0.000
99	ODDBALL STANDARD		-1.964
102	ODDBALL RARE	0.000	1.688
103	ODDBALL STANDARD	-1.688	0.000
104	ODDBALL STANDARD		0.000
105	ODDBALL STANDARD		-1.610
106	ODDBALL STANDARD		0.000
107	ODDBALL STANDARD	1.738	0.000
108	ODDBALL RARE	0.000	-1.738
111	ODDBALL STANDARD		0.000
112	ODDBALL STANDARD		0.000
113	ODDBALL STANDARD	1.646	-1.770
114	ODDBALL RARE	0.000	-1.646
115	ODDBALL STANDARD		0.000
116	ODDBALL STANDARD		0.000
117	ODDBALL STANDARD		0.000
118	ODDBALL STANDARD		0.000
119	ODDBALL STANDARD		-1.742
120	ODDBALL RARE	0.000	1.534
121	ODDBALL STANDARD	-1.534	0.000
122	ODDBALL STANDARD		-1.862
123	ODDBALL STANDARD		-1.938
124	ODDBALL STANDARD		-1.738
125	ODDBALL STANDARD	1.682	0.000
126	ODDBALL RARE	0.000	-1.682
127	ODDBALL STANDARD	-1.532	0.000
128	ODDBALL STANDARD		-1.586
129	ODDBALL STANDARD		-1.700
150	ODDBALL STANDARD		0.000
151	ODDBALL STANDARD		0.000
152	ODDBALL STANDARD	1.600	-1.888
153	ODDBALL RARE	0.000	-1.600
157	ODDBALL STANDARD		0.000
158	ODDBALL STANDARD	1.678	-1.804
165	ODDBALL RARE	0.000	1.952
166	ODDBALL STANDARD	-1.952	0.000
167	ODDBALL STANDARD		-1.570
168	ODDBALL STANDARD		-1.692
169	ODDBALL STANDARD	1.772	-1.666
170	ODDBALL RARE	0.000	-1.772
171	ODDBALL STANDARD		0.000
172	ODDBALL STANDARD		0.000
173	ODDBALL STANDARD		0.000
174	ODDBALL STANDARD		-1.662
175	ODDBALL RARE	0.000
176	ODDBALL STANDARD		0.000
177	ODDBALL STANDARD		0.000
178	ODDBALL STANDARD		0.000
179	ODDBALL STANDARD	1.916	-1.496
180	ODDBALL RARE	0.000	-1.916
181	ODDBALL STANDARD	-1.866	0.000
182	ODDBALL STANDARD		0.000
183	ODDBALL STANDARD		-1.680
184	ODDBALL STANDARD		-1.554
185	ODDBALL STANDARD		0.000
186	ODDBALL RARE	0.000	1.772
187	ODDBALL STANDARD	-1.772	0.000
188	ODDBALL STANDARD		-1.806
195	ODDBALL STANDARD		-1.720
196	ODDBALL RARE	0.000	1.700
197	ODDBALL STANDARD	-1.700	0.000

140 rows × 7 columns

ERP image (EEG) ica epochs

Drop log ica epochs

PSD ica epochs

PSD calculated from 140 epochs (560.0 s).

Autoreject cleaning ica epochs autoreject

ICA: components ica

Info ica

Method	picard
Fit parameters	fastica_it=5 max_iter=500
Fit	163 iterations on epochs (280140 samples)
ICA components	63
Available PCA components	63
Channel types	eeg
ICA components marked for exclusion	ICA004 ICA008

Original and cleaned signal ica

Scores for matching EOG patterns ica

Original and cleaned EOG epochs ica

ICA component topographies ica

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ICA component properties ica

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Events events

Epochs: before cleaning epochs

Info epochs

	General
	MNE object type	Epochs
	Measurement date	Unknown
	Participant	sub-004
	Experimenter	Unknown
	Acquisition
	Total number of events	200
	Events counts	ODDBALL RARE: 37 ODDBALL STANDARD: 163
	Time range	-2.000 – 2.000 s
	Baseline	off
	Sampling frequency	500.00 Hz
	Time points	2,001
	Metadata	200 rows × 6 columns
	Channels
	EEG
	EOG
	Head & sensor digitization	66 points
	Filters
	Highpass	1.00 Hz
	Lowpass	120.00 Hz
	Projections	Average EEG reference (off)

Metadata epochs

Epoch #	event_name	ODDBALL DONE	ODDBALL RARE	ODDBALL STANDARD	ODDBALL START
0	ODDBALL STANDARD			0.000	-0.988
1	ODDBALL STANDARD			-1.546
2	ODDBALL STANDARD			-1.736
3	ODDBALL STANDARD			-1.638
4	ODDBALL STANDARD			-1.812
5	ODDBALL RARE		0.000	1.548
6	ODDBALL STANDARD		-1.548	0.000
7	ODDBALL STANDARD			-1.958
8	ODDBALL STANDARD			0.000
9	ODDBALL STANDARD			-1.744
10	ODDBALL STANDARD			0.000
11	ODDBALL RARE		0.000	1.712
12	ODDBALL STANDARD		-1.712	0.000
13	ODDBALL STANDARD			0.000
14	ODDBALL STANDARD			0.000
15	ODDBALL STANDARD			-1.724
16	ODDBALL RARE		0.000
17	ODDBALL STANDARD			0.000
18	ODDBALL STANDARD			-1.820
19	ODDBALL STANDARD			0.000
20	ODDBALL STANDARD			0.000
21	ODDBALL STANDARD			0.000
22	ODDBALL RARE		0.000
23	ODDBALL STANDARD			0.000
24	ODDBALL STANDARD		1.562	-1.710
25	ODDBALL RARE		0.000	-1.562
26	ODDBALL STANDARD		-1.886	0.000
27	ODDBALL STANDARD			-1.710
28	ODDBALL STANDARD		1.580	-1.566
29	ODDBALL RARE		0.000	-1.580
30	ODDBALL STANDARD		-1.912	0.000
31	ODDBALL STANDARD			0.000
32	ODDBALL STANDARD			-1.918
33	ODDBALL STANDARD			0.000
34	ODDBALL STANDARD		1.678	0.000
35	ODDBALL RARE		0.000	-1.678
36	ODDBALL STANDARD			0.000
37	ODDBALL STANDARD			0.000
38	ODDBALL STANDARD			-1.802
39	ODDBALL STANDARD			-1.830
40	ODDBALL STANDARD			0.000
41	ODDBALL RARE		0.000	1.718
42	ODDBALL STANDARD		-1.718	0.000
43	ODDBALL STANDARD			0.000
44	ODDBALL STANDARD			0.000
45	ODDBALL STANDARD			-1.708
46	ODDBALL STANDARD			0.000
47	ODDBALL RARE		0.000
48	ODDBALL STANDARD			0.000
49	ODDBALL STANDARD			0.000
50	ODDBALL STANDARD			0.000
51	ODDBALL STANDARD			0.000
52	ODDBALL STANDARD		1.972	0.000
53	ODDBALL RARE		0.000	-1.972
54	ODDBALL STANDARD			0.000
55	ODDBALL STANDARD			0.000
56	ODDBALL STANDARD			-1.628
57	ODDBALL STANDARD		1.692	0.000
58	ODDBALL RARE		0.000	-1.692
59	ODDBALL STANDARD		-1.546	0.000
60	ODDBALL STANDARD			-1.556
61	ODDBALL STANDARD			-1.630
62	ODDBALL STANDARD			-1.900
63	ODDBALL STANDARD		1.822	0.000
64	ODDBALL RARE		0.000	-1.822
65	ODDBALL STANDARD			0.000
66	ODDBALL STANDARD			0.000
67	ODDBALL STANDARD			0.000
68	ODDBALL STANDARD			-1.868
69	ODDBALL RARE		0.000
70	ODDBALL STANDARD			0.000
71	ODDBALL STANDARD			-1.712
72	ODDBALL STANDARD		1.820	-1.612
73	ODDBALL RARE		0.000	-1.820
74	ODDBALL STANDARD		-1.990	0.000
75	ODDBALL STANDARD			0.000
76	ODDBALL STANDARD			-1.672
77	ODDBALL STANDARD			0.000
78	ODDBALL STANDARD			-1.732
79	ODDBALL RARE		0.000	1.816
80	ODDBALL STANDARD		-1.816	0.000
81	ODDBALL STANDARD		1.818	0.000
82	ODDBALL RARE		0.000	-1.818
83	ODDBALL STANDARD		-1.996	0.000
84	ODDBALL STANDARD			0.000
85	ODDBALL STANDARD			0.000
86	ODDBALL STANDARD			0.000
87	ODDBALL STANDARD		1.546	0.000
88	ODDBALL RARE		0.000	-1.546
89	ODDBALL STANDARD		-1.626	0.000
90	ODDBALL STANDARD		1.590	-1.872
91	ODDBALL RARE		0.000	-1.590
92	ODDBALL STANDARD			0.000
93	ODDBALL STANDARD			-1.730
94	ODDBALL STANDARD			0.000
95	ODDBALL STANDARD			0.000
96	ODDBALL RARE		0.000	1.546
97	ODDBALL STANDARD		-1.546	0.000
98	ODDBALL STANDARD			0.000
99	ODDBALL STANDARD			-1.964
100	ODDBALL STANDARD			0.000
101	ODDBALL STANDARD			-1.952
102	ODDBALL RARE		0.000	1.688
103	ODDBALL STANDARD		-1.688	0.000
104	ODDBALL STANDARD			0.000
105	ODDBALL STANDARD			-1.610
106	ODDBALL STANDARD			0.000
107	ODDBALL STANDARD		1.738	0.000
108	ODDBALL RARE		0.000	-1.738
109	ODDBALL STANDARD		-1.900	0.000
110	ODDBALL STANDARD			0.000
111	ODDBALL STANDARD			0.000
112	ODDBALL STANDARD			0.000
113	ODDBALL STANDARD		1.646	-1.770
114	ODDBALL RARE		0.000	-1.646
115	ODDBALL STANDARD			0.000
116	ODDBALL STANDARD			0.000
117	ODDBALL STANDARD			0.000
118	ODDBALL STANDARD			0.000
119	ODDBALL STANDARD			-1.742
120	ODDBALL RARE		0.000	1.534
121	ODDBALL STANDARD		-1.534	0.000
122	ODDBALL STANDARD			-1.862
123	ODDBALL STANDARD			-1.938
124	ODDBALL STANDARD			-1.738
125	ODDBALL STANDARD		1.682	0.000
126	ODDBALL RARE		0.000	-1.682
127	ODDBALL STANDARD		-1.532	0.000
128	ODDBALL STANDARD			-1.586
129	ODDBALL STANDARD			-1.700
130	ODDBALL STANDARD			0.000
131	ODDBALL STANDARD			-1.748
132	ODDBALL RARE		0.000
133	ODDBALL STANDARD			0.000
134	ODDBALL STANDARD			-1.566
135	ODDBALL STANDARD			0.000
136	ODDBALL STANDARD			0.000
137	ODDBALL RARE		0.000
138	ODDBALL STANDARD			0.000
139	ODDBALL STANDARD			0.000
140	ODDBALL STANDARD			0.000
141	ODDBALL STANDARD			-1.574
142	ODDBALL STANDARD		1.872	-1.516
143	ODDBALL RARE		0.000	-1.872
144	ODDBALL STANDARD			0.000
145	ODDBALL STANDARD			0.000
146	ODDBALL STANDARD		1.518	0.000
147	ODDBALL RARE		0.000	-1.518
148	ODDBALL STANDARD			0.000
149	ODDBALL STANDARD			-1.574
150	ODDBALL STANDARD			0.000
151	ODDBALL STANDARD			0.000
152	ODDBALL STANDARD		1.600	-1.888
153	ODDBALL RARE		0.000	-1.600
154	ODDBALL STANDARD		-1.922	0.000
155	ODDBALL STANDARD			0.000
156	ODDBALL STANDARD			0.000
157	ODDBALL STANDARD			0.000
158	ODDBALL STANDARD		1.678	-1.804
159	ODDBALL RARE		0.000	-1.678
160	ODDBALL STANDARD			0.000
161	ODDBALL STANDARD			0.000
162	ODDBALL STANDARD			0.000
163	ODDBALL STANDARD			-1.800
164	ODDBALL STANDARD			0.000
165	ODDBALL RARE		0.000	1.952
166	ODDBALL STANDARD		-1.952	0.000
167	ODDBALL STANDARD			-1.570
168	ODDBALL STANDARD			-1.692
169	ODDBALL STANDARD		1.772	-1.666
170	ODDBALL RARE		0.000	-1.772
171	ODDBALL STANDARD			0.000
172	ODDBALL STANDARD			0.000
173	ODDBALL STANDARD			0.000
174	ODDBALL STANDARD			-1.662
175	ODDBALL RARE		0.000
176	ODDBALL STANDARD			0.000
177	ODDBALL STANDARD			0.000
178	ODDBALL STANDARD			0.000
179	ODDBALL STANDARD		1.916	-1.496
180	ODDBALL RARE		0.000	-1.916
181	ODDBALL STANDARD		-1.866	0.000
182	ODDBALL STANDARD			0.000
183	ODDBALL STANDARD			-1.680
184	ODDBALL STANDARD			-1.554
185	ODDBALL STANDARD			0.000
186	ODDBALL RARE		0.000	1.772
187	ODDBALL STANDARD		-1.772	0.000
188	ODDBALL STANDARD			-1.806
189	ODDBALL STANDARD			0.000
190	ODDBALL STANDARD			0.000
191	ODDBALL STANDARD		1.546	0.000
192	ODDBALL RARE		0.000	-1.546
193	ODDBALL STANDARD		-1.956	0.000
194	ODDBALL STANDARD			0.000
195	ODDBALL STANDARD			-1.720
196	ODDBALL RARE		0.000	1.700
197	ODDBALL STANDARD		-1.700	0.000
198	ODDBALL STANDARD			0.000
199	ODDBALL STANDARD	0.502		-1.974

200 rows × 7 columns

ERP image (EEG) epochs

Drop log epochs

No epochs exceeded the rejection thresholds. Nothing was dropped.

PSD epochs

ICA: removals ica

Info ica

Method	picard
Fit parameters	fastica_it=5 max_iter=500
Fit	163 iterations on epochs (280140 samples)
ICA components	63
Available PCA components	63
Channel types	eeg
ICA components marked for exclusion	ICA004 ICA008

Original and cleaned signal ica

ICA component topographies ica

ICA component properties ica

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Raw (clean), run 01 clean raw run-01

Info raw run-01 clean

	General
	Filename(s)	sub-004_task-Oddball_run-01_proc-filt_raw.fif
	MNE object type	Raw
	Measurement date	Unknown
	Participant	sub-004
	Experimenter	Unknown
	Acquisition
	Duration	00:09:11 (HH:MM:SS)
	Sampling frequency	500.00 Hz
	Time points	275,500
	Channels
	EEG
	EOG
	Head & sensor digitization	66 points
	Filters
	Highpass	1.00 Hz
	Lowpass	120.00 Hz

Time series raw run-01 clean

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PSD raw run-01 clean

Epochs: after cleaning clean epochs

autoreject_local cleaning epochs clean

Info epochs clean

	General
	Filename(s)	sub-004_task-Oddball_proc-ica_epo.fif
	MNE object type	EpochsFIF
	Measurement date	Unknown
	Participant	sub-004
	Experimenter	Unknown
	Acquisition
	Total number of events	105
	Events counts	ODDBALL RARE: 23 ODDBALL STANDARD: 82
	Time range	-2.000 – 2.000 s
	Baseline	-0.200 – 0.000 s
	Sampling frequency	500.00 Hz
	Time points	2,001
	Metadata	105 rows × 6 columns
	Channels
	EEG
	EOG
	Head & sensor digitization	66 points
	Filters
	Highpass	1.00 Hz
	Lowpass	120.00 Hz
	Projections	Average EEG reference (on)

Metadata epochs clean

Epoch #	event_name	ODDBALL RARE	ODDBALL STANDARD	STATUS/S 53
8	ODDBALL STANDARD		0.000	None
9	ODDBALL STANDARD		-1.744	None
10	ODDBALL STANDARD		0.000	None
11	ODDBALL RARE	0.000	1.712	None
12	ODDBALL STANDARD	-1.712	0.000	None
16	ODDBALL RARE	0.000		None
17	ODDBALL STANDARD		0.000	None
20	ODDBALL STANDARD		0.000	None
24	ODDBALL STANDARD	1.562	-1.710	None
25	ODDBALL RARE	0.000	-1.562	None
26	ODDBALL STANDARD	-1.886	0.000	None
29	ODDBALL RARE	0.000	-1.580	None
30	ODDBALL STANDARD	-1.912	0.000	None
31	ODDBALL STANDARD		0.000	None
34	ODDBALL STANDARD	1.678	0.000	None
35	ODDBALL RARE	0.000	-1.678	None
36	ODDBALL STANDARD		0.000	None
41	ODDBALL RARE	0.000	1.718	None
42	ODDBALL STANDARD	-1.718	0.000	None
43	ODDBALL STANDARD		0.000	None
46	ODDBALL STANDARD		0.000	None
47	ODDBALL RARE	0.000		None
48	ODDBALL STANDARD		0.000	None
49	ODDBALL STANDARD		0.000	None
55	ODDBALL STANDARD		0.000	None
56	ODDBALL STANDARD		-1.628	None
57	ODDBALL STANDARD	1.692	0.000	None
58	ODDBALL RARE	0.000	-1.692	None
59	ODDBALL STANDARD	-1.546	0.000	None
60	ODDBALL STANDARD		-1.556	None
61	ODDBALL STANDARD		-1.630	None
62	ODDBALL STANDARD		-1.900	None
65	ODDBALL STANDARD		0.000	None
67	ODDBALL STANDARD		0.000	None
70	ODDBALL STANDARD		0.000	None
71	ODDBALL STANDARD		-1.712	None
72	ODDBALL STANDARD	1.820	-1.612	None
75	ODDBALL STANDARD		0.000	None
76	ODDBALL STANDARD		-1.672	None
77	ODDBALL STANDARD		0.000	None
78	ODDBALL STANDARD		-1.732	None
81	ODDBALL STANDARD	1.818	0.000	None
82	ODDBALL RARE	0.000	-1.818	None
85	ODDBALL STANDARD		0.000	None
88	ODDBALL RARE	0.000	-1.546	None
89	ODDBALL STANDARD	-1.626	0.000	None
90	ODDBALL STANDARD	1.590	-1.872	None
91	ODDBALL RARE	0.000	-1.590	None
94	ODDBALL STANDARD		0.000	None
95	ODDBALL STANDARD		0.000	None
96	ODDBALL RARE	0.000	1.546	None
97	ODDBALL STANDARD	-1.546	0.000	None
98	ODDBALL STANDARD		0.000	None
99	ODDBALL STANDARD		-1.964	None
102	ODDBALL RARE	0.000	1.688	None
104	ODDBALL STANDARD		0.000	None
105	ODDBALL STANDARD		-1.610	None
108	ODDBALL RARE	0.000	-1.738	None
111	ODDBALL STANDARD		0.000	None
112	ODDBALL STANDARD		0.000	None
113	ODDBALL STANDARD	1.646	-1.770	None
114	ODDBALL RARE	0.000	-1.646	None
115	ODDBALL STANDARD		0.000	None
116	ODDBALL STANDARD		0.000	None
117	ODDBALL STANDARD		0.000	None
118	ODDBALL STANDARD		0.000	None
119	ODDBALL STANDARD		-1.742	None
120	ODDBALL RARE	0.000	1.534	None
121	ODDBALL STANDARD	-1.534	0.000	None
122	ODDBALL STANDARD		-1.862	None
123	ODDBALL STANDARD		-1.938	None
124	ODDBALL STANDARD		-1.738	None
125	ODDBALL STANDARD	1.682	0.000	None
126	ODDBALL RARE	0.000	-1.682	None
127	ODDBALL STANDARD	-1.532	0.000	None
128	ODDBALL STANDARD		-1.586	None
129	ODDBALL STANDARD		-1.700	None
150	ODDBALL STANDARD		0.000	None
151	ODDBALL STANDARD		0.000	None
152	ODDBALL STANDARD	1.600	-1.888	None
153	ODDBALL RARE	0.000	-1.600	None
158	ODDBALL STANDARD	1.678	-1.804	None
168	ODDBALL STANDARD		-1.692	None
169	ODDBALL STANDARD	1.772	-1.666	None
170	ODDBALL RARE	0.000	-1.772	None
171	ODDBALL STANDARD		0.000	None
172	ODDBALL STANDARD		0.000	None
173	ODDBALL STANDARD		0.000	None
174	ODDBALL STANDARD		-1.662	None
175	ODDBALL RARE	0.000		None
177	ODDBALL STANDARD		0.000	None
178	ODDBALL STANDARD		0.000	None
179	ODDBALL STANDARD	1.916	-1.496	None
180	ODDBALL RARE	0.000	-1.916	None
181	ODDBALL STANDARD	-1.866	0.000	None
182	ODDBALL STANDARD		0.000	None
183	ODDBALL STANDARD		-1.680	None
184	ODDBALL STANDARD		-1.554	None
185	ODDBALL STANDARD		0.000	None
186	ODDBALL RARE	0.000	1.772	None
187	ODDBALL STANDARD	-1.772	0.000	None
188	ODDBALL STANDARD		-1.806	None
195	ODDBALL STANDARD		-1.720	None
196	ODDBALL RARE	0.000	1.700	None
197	ODDBALL STANDARD	-1.700	0.000	None

105 rows × 7 columns

ERP image (EEG) epochs clean

Drop log epochs clean

PSD epochs clean

Condition: ODDBALL STANDARD evoked oddball-standard

Info evoked oddball-standard

	General
	MNE object type	EvokedArray
	Measurement date	Unknown
	Participant	sub-004
	Experimenter	Unknown
	Acquisition
	Aggregation	average of 82 epochs
	Condition	ODDBALL STANDARD
	Time range	-2.000 – 2.000 s
	Baseline	-0.200 – 0.000 s
	Sampling frequency	500.00 Hz
	Time points	2,001
	Channels
	EEG
	Head & sensor digitization	66 points
	Filters
	Highpass	1.00 Hz
	Lowpass	120.00 Hz
	Projections	Average EEG reference (on)

Time course (EEG) evoked oddball-standard

Topographies evoked oddball-standard

Move the slider or click on the image and use the ← and → keys to browse.

Global field power evoked oddball-standard

Condition: ODDBALL RARE evoked oddball-rare

Info evoked oddball-rare

	General
	MNE object type	EvokedArray
	Measurement date	Unknown
	Participant	sub-004
	Experimenter	Unknown
	Acquisition
	Aggregation	average of 23 epochs
	Condition	ODDBALL RARE
	Time range	-2.000 – 2.000 s
	Baseline	-0.200 – 0.000 s
	Sampling frequency	500.00 Hz
	Time points	2,001
	Channels
	EEG
	Head & sensor digitization	66 points
	Filters
	Highpass	1.00 Hz
	Lowpass	120.00 Hz
	Projections	Average EEG reference (on)

Time course (EEG) evoked oddball-rare

Topographies evoked oddball-rare

Move the slider or click on the image and use the ← and → keys to browse.

Global field power evoked oddball-rare

TFR Power: ODDBALL STANDARD time-frequency oddball-standard

TFR ITC: ODDBALL STANDARD time-frequency oddball-standard

TFR Power: ODDBALL RARE time-frequency oddball-rare

TFR ITC: ODDBALL RARE time-frequency oddball-rare

Noise covariance covariance evoked oddball-rare oddball-standard

Covariance matrix covariance

Singular values covariance

Whitening: ODDBALL STANDARD evoked covariance oddball-standard

Whitening: ODDBALL RARE evoked covariance oddball-rare

Configuration file configuration

  # Default settings for data processing and analysis.

from collections.abc import Callable, Sequence
import sys
from typing import Annotated, Any, Literal

from annotated_types import Ge, Interval, Len, MinLen
from mne import Covariance
from mne_bids import BIDSPath

from mne_bids_pipeline.typing import (
     ArbitraryContrast,
     DigMontageType,
     FloatArrayLike,
     PathLike,
 )

import argparse

import numpy as np

bids_root = "./data_split/"

interactive = False


args = [arg for arg in sys.argv if arg.startswith("--task") or not arg.startswith("-")]
parser = argparse.ArgumentParser()
parser.add_argument("ignored", nargs="*")
parser.add_argument(
    "--task", choices=("Gambling","Oddball","Axon"), required=True
)
task = parser.parse_args(args).task 
sessions = "all"

runs = "all" # Always 01 anyway
#crop_runs: tuple[float, float] | None = None
subjects = "all"

ch_types = ["eeg"] # not considering eog channels 
data_type = "eeg" # redundant


eog_channels = None # has to be none, because we have actual EOG channels

eeg_reference = "average" # default setting

#TODO check if this actually applies montage
eeg_template_montage = None # custom montage

#drop_channels: Sequence[str] = []

# Read full_config.py for more context
# Might make sense to restrict this?
analyze_channels = "ch_types"


read_raw_bids_verbose = 'error' # Don't log everyting, since files are not perfectly BIDS compliant

#FFT Power spectrum
plot_psd_for_runs = "all" # Default value



######################### Preprocessing #########################


# Read full_config.py for more context
# Paper doesn't mention breaks, but could have still happened since gameplay was quite long
find_breaks: bool = True # Default is false

min_break_duration: float = 15.0 # Default value

# Makes sense, also considering our epoching
t_break_annot_start_after_previous_event: float = 5.0 # Default value
t_break_annot_stop_before_next_event: float = 5.0 # Default value




# ## Bad channel detection
#
# Read full_config.py for context of the used algorithm

# Original paper simply removed most ventral electrodes (leaving 60).
# Is there something like this for eeg channels?
#find_flat_channels_meg: bool = True # Default is False
#find_noisy_channels_meg: bool = True # Default is False


# %%
# ## Maxwell filter

# Read full_config.py for context
# Might make sense to enable? There are many parameters than can be set
# Chose to keep disabled since it doesn't seem to be common? (esp. for EEG data)
# According to the samples: https://mne.tools/mne-bids-pipeline/stable/examples/examples.html
# use_maxwell_filter: bool = False
# mf_st_duration: float | None = None


# ## Filtering & resampling

# ### Filtering
#
# Read full_config.py for context (!!!)
# mne-bids-pipeline does not allow ICA if l_freq is below 1 Hz!! See ica_l_freq in full_config.py
l_freq: float | None = 1 # Paper uses 0.1 Hz, full_config.py recommends 1 Hz
h_freq: float | None = 120 # Paper uses 20 Hz, full_config.py recommends 40 or 120 depending on type of analysis

#TODO Why does this default to None? See if powerline noise is filtered elsewhere
notch_freq: float | Sequence[float] | None = 60 # Default is None
# notch_trans_bandwidth: float = 1.0



# ### Resampling
#
# Not necessary since already 500Hz
# raw_resample_sfreq: float | None = None


# ## Epoching

# Could be useful if event names are not as desired
# rename_events: dict = dict()
# on_rename_missing_events: Literal["ignore", "warn", "raise"] = "raise"

# TODO TODO TODO TODO

#1) missile launch button press (SHOOT_BUTTON)
#2) collect star (COLLECT_STAR)
#3) collect ammo box (COLLECT_AMMO)
#4) crash into wall (PLAYER_CRASH_WALL)
#5) crash into enemy (PLAYER_CRASH_ENEMY)
#6) missile hit enemy (MISSILE_HIT_ENEMY)

"""
The paper describes issues with the "PLAYER_CRASH_WALL" and "COLLECT_STAR" events often occuring in rapid succession, where only the first one is kept.
The filtering has already been done in step 01, and the offending events are now marked as "IGNORE PLAYER_CRASH_WALL" and "IGNORE COLLECT_STAR"
"""

conditions = []

if(task == "Gambling"): #"Wins and losses" Exemplar events
    conditions = ["GAMBLING LOSS", "GAMBLING WIN"]
elif(task == "Oddball"): #"Target detection" Exemplar events
    conditions = ["ODDBALL STANDARD", "ODDBALL RARE"]
elif(task == "Axon"):
    #There are also "GAME OVER" and "GAME START", but they occur only once (?)
    conditions = ["SHOOT_BUTTON", "MISSILE_HIT_ENEMY", "COLLECT_STAR", "COLLECT_AMMO", "PLAYER_CRASH_ENEMY", "PLAYER_CRASH_WALL"]

#TODO Check whether these epoch timings from the paper make sense. They seem unusually long?
epochs_tmin: float = -2
epochs_tmax: float = 2

#Also from the paper
baseline: tuple[float | None, float | None] | None = (-0.2, 0)


# ## Artifact removal

# ### SSP, ICA, and artifact regression

#TODO check if this performs the intended behavior (removing eye artifacts from eeg by using the eog channels)
# For some reason, this throws an error :(
#regress_artifact = {
#    "picks": "eeg", 
#    "picks_artifact": ["HEOG", "VEOG"]
#}

#TODO maybe SSP could make sense too?
# For SSP there are some more variables aswell
spatial_filter: Literal["ssp", "ica"] | None = "ica"
# """
# !!! warning "ICA requires manual intervention!"
#     After the automatic ICA component detection step, review each subject's
#     `*_report.html` report file check if the set of ICA components to be removed
#     is correct. Adjustments should be made to the `*_proc-ica_components.tsv`
#     file, which will then be used in the step that is applied during ICA.

#     ICA component order can be considered arbitrary, so any time the ICA is
#     re-fit – i.e., if you change any parameters that affect steps prior to
#     ICA fitting – this file will need to be updated!
# """

#TODO check percentage of rejected epochs. Paper states 3.27%
ica_reject: dict[str, float] | Literal["autoreject_local"] | None = "autoreject_local"


# Can go as high as 3000 for convergence
# ica_max_iterations: int = 500

# Read full_config.py for context
# None == 0.9999 might be optimal if only artifact removal is of interest
# ica_n_components: float | int | None = None


#TODO Browse raw data to find actual eog and ecg thresholds
#Read full_config.py for tips on how to do this
# ica_ecg_threshold: float = 0.1
# """
# The cross-trial phase statistics (CTPS) threshold parameter used for detecting
# ECG-related ICs.
# """

# ica_eog_threshold: float = 3.0
# """
# The threshold to use during automated EOG classification. Lower values mean
# that more ICs will be identified as EOG-related. If too low, the
# false-alarm rate increases dramatically.
# """

#For rejection after ICA
#Probably makes the most sense for data with moderate amounts of artifacts
reject: dict[str, float] | Literal["autoreject_global", "autoreject_local"] | None = "autoreject_local"#(
#     None
# )


# In the paper a median of 2 electrodes (range 1 to 3) was interpolated, so add these values
autoreject_n_interpolate: FloatArrayLike = [1,2,3, 4, 8, 16] # Default [4, 8, 16]
# """
# The maximum number of bad channels in an epoch that `autoreject` local will try to
# interpolate. The optimal number among this list will be estimated using a
# cross-validation procedure; this means that the more elements are provided here, the
# longer the `autoreject` run will take. If the number of bad channels in an epoch
# exceeds this value, the channels won't be interpolated and the epoch will be dropped.

# Read full_config.py for more context
# Has many more parameters
decode = False # Default is True

# ## Time-frequency analysis

# Just put in all events for now (?)
time_frequency_conditions: Sequence[str] = conditions

#TODO look at the data to find optimal values
# time_frequency_freq_min: float | None = 8
# time_frequency_freq_max: float | None = 40

time_frequency_freq_min = 1  # minimum frequency in Hz
time_frequency_freq_max = 50  # maximum frequency in Hz
#1 to 50 Hz in 49 logarithmically spaced steps
frequencies = np.logspace(np.log10(time_frequency_freq_min), np.log10(time_frequency_freq_max), 49)

# sigma
time_frequency_cycles = 4 / (2 * np.pi * frequencies)

# time_frequency_subtract_evoked: bool = False

time_frequency_baseline: tuple[float, float] | None = (-0.3, -0.2)
time_frequency_baseline_mode: str = "logratio" # Default is "mean"
time_frequency_crop: dict | None = dict(tmin=-0.5, tmax=1, fmin=1, fmax=50) # Default in None



n_jobs: int = 12
# """
# Specifies how many subjects you want to process in parallel. If `1`, disables
# parallel processing.
# """

System information mne-sysinfo

  Platform             Linux-6.5.0-44-generic-x86_64-with-glibc2.38
Python               3.11.6 (main, Apr 10 2024, 17:26:07) [GCC 13.2.0]
Executable           /home/okk/.local/bin/python3.11
CPU                  x86_64 (12 cores)
Memory               62.7 GB

Core
├☑ mne               1.8.0 (latest release)
├☑ numpy             1.26.4 (OpenBLAS 0.3.23.dev with 1 thread)
├☑ scipy             1.12.0
└☑ matplotlib        3.8.2 (backend=agg)

Numerical (optional)
├☑ sklearn           1.3.2
├☑ numba             0.58.1
├☑ nibabel           5.3.2
├☑ pandas            1.5.3
├☑ h5io              0.2.4
├☑ h5py              3.10.0
└☐ unavailable       nilearn, dipy, openmeeg, cupy

Visualization (optional)
├☑ pyvista           0.44.2 (OpenGL 4.5.0 NVIDIA 535.171.04 via NVIDIA GeForce GTX 1060 6GB/PCIe/SSE2)
├☑ pyvistaqt         0.11.1
├☑ vtk               9.3.1
├☑ qtpy              2.4.2 (PyQt5=5.15.14)
├☑ pyqtgraph         0.13.7
└☐ unavailable       ipympl, mne-qt-browser, ipywidgets, trame_client, trame_server, trame_vtk, trame_vuetify

Ecosystem (optional)
├☑ mne-bids          0.16.0
├☑ mne-bids-pipeline 1.9.0
├☑ eeglabio          0.0.3
├☑ edfio             0.4.5
├☑ pybv              0.7.6
└☐ unavailable       mne-nirs, mne-features, mne-connectivity, mne-icalabel, neo, mffpy

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